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Prism software version 6

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Prism software version 6.0 is a data analysis and graphing tool developed by GraphPad. It provides features for data organization, statistical analysis, and visualization of scientific data.

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Lab products found in correlation

Spss software version 16, by IBM (2 mentions) Spss software version 24, by IBM (1 mentions) Spss statistics 24, by IBM (1 mentions) Lookout mycoplasma pcr detection kit, by Merck Group (1 mentions) Hiseq 2000, by Illumina (1 mentions) Compusyn software, by ComboSyn (1 mentions) Sybr green 1 fluorescent dye, by Thermo Fisher Scientific (1 mentions) R software version 3, by R Project for Statistical Computing (1 mentions) Spss statistical software for windows version 25, by IBM (1 mentions) Synergy ht multi mode microplate reader, by Agilent Technologies (1 mentions) Cck 8 assay, by Beyotime (1 mentions) Jmp software version 10, by SAS Institute (1 mentions) Synergy plate reader, by Agilent Technologies (1 mentions) Caspase glo 3 7 assay, by Promega (1 mentions) Stata software version 11, by StataCorp (1 mentions) Spss software version 21, by IBM (1 mentions) Spss 22, by IBM (1 mentions) Flexstation 3 microplate reader, by Molecular Devices (1 mentions) R version 3, by GraphPad (1 mentions) Spss version 23, by IBM (1 mentions)

131 protocols using prism software version 6

1

Comparing RNA-seq and qRT-PCR Gene Expression

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The one and two-way analysis of variance (ANNOVA) followed by a Bonferroni test were performed from data in triplicates (mean ± SD) using GraphPad prism software version 6.0. To examine the correlations between gene expression profiles obtained from RNA-seq and qRT-pCR, log2 fold change values were estimated among different shoots and stolons accessions. The scatterplots were then created by comparing log2 fold change values determined by RNA-seq and qRT-PCR using GraphPad prism software version 6.0. The correlations were represented in terms of coefficient of determination, i.e., R2.
Kumar V., Bansal A, & Chauhan R.S. (2017). Modular Design of Picroside-II Biosynthesis Deciphered through NGS Transcriptomes and Metabolic Intermediates Analysis in Naturally Variant Chemotypes of a Medicinal Herb, Picrorhiza kurroa. Frontiers in Plant Science, 8, 564.
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2

Tissue Viability and Histomorphometric Analysis

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Tissue viability data (XTT and glucose consumption) and histomorphometric analyses were analyzed using Anova followed by Tuckey's post hoc-test in Graph Pad prism software version 6.
El-Gendy R., Junaid S., Lam S.K., Elson K.M., Tipper J.L., Hall R.M., Ingham E, & Kirkham J. (2021). Developing a Tooth in situ Organ Culture Model for Dental and Periodontal Regeneration Research. Frontiers in Bioengineering and Biotechnology, 8, 581413.
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3

Experimental Data Presentation and Analysis

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Each experiment was repeated at three independent times. Data were presented as the mean ± SD. Unpaired two‐tailed Student's t test between two groups and one‐way ANOVA followed by Tukey's post hoc test between multiple groups were applied. Prism software version 6 (GraphPad software) was used to plot. Differences were considered as significant where P < .05 represented as * and P < .01 represented as **.
Liu F., Ai F., Zhang D., Tian L., Yang Z, & Liu S. (2019). LncRNA NEAT1 knockdown attenuates autophagy to elevate 5‐FU sensitivity in colorectal cancer via targeting miR‐34a. Cancer Medicine, 9(3), 1079-1091.
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4

Statistical Analysis of In Vivo Corneal Swab

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All the statistical analysis conducted in the manuscript was performed using GraphPad Prism Software Version-6. All the error bars represent mean ± SD, which were automatically calculated by the software. All one-way ANOVA analysis used Dunnett’s multiple comparison tests with a single pooled variance. All two-way ANOVA analysis used Sidak’s multiple comparison tests. Plaque numbers from the in vivo corneal swab were analyzed using unpaired t tests.
Yadavalli T., Agelidis A., Jaishankar D., Mangano K., Thakkar N., Penmetcha K, & Shukla D. (2017). Targeting Herpes Simplex Virus-1 gD by a DNA Aptamer Can Be an Effective New Strategy to Curb Viral Infection. Molecular Therapy. Nucleic Acids, 9, 365-378.
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5

Statistical Analysis of Biological Experiments

Cited 1 time
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Where appropriate, anova, unpaired or paired T test were performed using prism software version 6 (Graph Pad) Statistical studies were validated by Omran Allatif (Statistician CIRI, Lyon, France[46 (link),48 (link)]).
Ainouze M., Rochefort P., Parroche P., Roblot G., Tout I., Briat F., Zannetti C., Marotel M., Goutagny N., Auron P., Traverse-Glehen A., Lunel-Potencier A., Golfier F., Masson M., Robitaille A., Tommasino M., Carreira C., Walzer T., Henry T., Zanier K., Trave G, & Hasan U.A. (2018). Human papillomavirus type 16 antagonizes IRF6 regulation of IL-1β. PLoS Pathogens, 14(8), e1007158.
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6

Statistical Analysis of Experimental Data

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The Grubbs’ test, also called the ESD (extreme Studentized deviate) method, was employed to detect outliers. Data were statistically analyzed and plotted with PRISM software version 6 or 7 (GraphPad, San Diego, CA). Statistical differences were tested using the Student’s t-test, or a one-way or two-way ANOVA, with either a Tukey’s post hoc test for multiple comparisons or a Dunnett’s post hoc analysis to compare groups to the control. Differences were considered to be significant at p < 0.05. Determinations of significant difference in mRNA values were performed using Relative Expression Software Tool (REST©) 2.0 with 2000 iterations (Pfaffl et al., 2002 (link)).
Lyons E.L., Leone-Kabler S., Kovach A.L., Thomas B.F, & Howlett A.C. (2020). Cannabinoid receptor subtype influence on neuritogenesis in human SH-SY5Y cells. Molecular and cellular neurosciences, 109, 103566.
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7

Quantitative Analysis of Murine Phenotypes

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Quantitative data are presented as means + SEM. No statistical method was used to predetermine sample size, which was based on preliminary data and previous studies. Each experiment was performed at least 3 times. Mice were excluded from experiments if they showed any sign of morbidity. The statistical significance of differences in mean values was determined with the 2-tailed Student’s t test or Welch’s t test for comparisons between 2 groups and by 1-way ANOVA and Tukey’s or Bonferroni’s test for comparisons among 3 or more groups. A P value of less than 0.05 was considered statistically significant. Data analysis was performed with Prism software version 6 (GraphPad Software).
Matsukawa T., Yagi T., Uchida T., Sakai M., Mitsushima M., Naganuma T., Yano H., Inaba Y., Inoue H., Yanagida K., Uematsu M., Nakao K., Nakao H., Aiba A., Nagashima Y., Kubota T., Kubota N., Izumida Y., Yahagi N., Unoki-Kubota H., Kaburagi Y., Asahara S.I., Kido Y., Shindou H., Itoh M., Ogawa Y., Minami S., Terauchi Y., Tobe K., Ueki K., Kasuga M, & Matsumoto M. (2023). Hepatic FASN deficiency differentially affects nonalcoholic fatty liver disease and diabetes in mouse obesity models. JCI Insight, 8(17), e161282.
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8

Statistical Analysis of Research Data

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The Statistical analysis was performed using GraphPad prism software version 6. The tests used are indicated in the Figure Legends.
Ahmed M.I., Ntinginya N.E., Kibiki G., Mtafya B.A., Semvua H., Mpagama S., Mtabho C., Saathoff E., Held K., Loose R., Kroidl I., Chachage M., von Both U., Haule A., Mekota A.M., Boeree M.J., Gillespie S.H., Hoelscher M., Heinrich N, & Geldmacher C. (2018). Phenotypic Changes on Mycobacterium Tuberculosis-Specific CD4 T Cells as Surrogate Markers for Tuberculosis Treatment Efficacy. Frontiers in Immunology, 9, 2247.
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9

Statistical Analysis of Experimental Data

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Prism software version 6 (GraphPad Software, Inc., La Jolla, CA) was used for all statistical analysis. Statistical comparisons of treatment groups were performed with the Student’s t-test and correlation (r) between data sets were determined by Pearson correlation efficient. P <0.05 was considered statistically significant. *P < .05; ** P < .01; *** P < .005; **** P < .0001.
Chan A.S., Jonas A.B., Qiu X., Ottoson N.R., Walsh R.M., Gorden K.B., Harrison B., Maimonis P.J., Leonardo S.M., Ertelt K.E., Danielson M.E., Michel K.S., Nelson M., Graff J.R., Patchen M.L, & Bose N. (2016). Imprime PGG-Mediated Anti-Cancer Immune Activation Requires Immune Complex Formation. PLoS ONE, 11(11), e0165909.
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10

Tissue Microarray Characterization of CPEB Methylation

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Histological characterization of tissue microarrays was performed by microscopic observation and digital scan of stained specimens. Tissues were classified as positive or negative for the respective antibody. Afterwards, the positive samples were further divided into three intensity groups: 1-weak, 2-intermediate or 3-strong. Statistical analysis (Student's t test or Fisher's exact test) of CPEB expression, CPEB1/3 methylation as well as putative correlation with clinical and molecular data including overall survival, malignancy grade, IDH status was carried out with Prism Software Version 6 the GraphPad Software, Inc (La Jolla, USA) and OrigeneLab Corporation (Northampton, USA).
Skubal M., Gielen G.H., Waha A., Gessi M., Kaczmarczyk L., Seifert G., Freihoff D., Freihoff J., Pietsch T., Simon M., Theis M., Steinhäuser C, & Waha A. (2016). Altered splicing leads to reduced activation of CPEB3 in high-grade gliomas. Oncotarget, 7(27), 41898-41912.
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